Explore Workflows

View already parsed workflows here or click here to add your own

Graph Name Retrieved From View
workflow graph Varscan Workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/varscan_pre_and_post_processing.cwl

Branch/Commit ID: 25eab0390f6866ce491b44c89d9e0435d228ab6f
workflow graph hello_world.cwl

https://github.com/abessiari/hello_world.git

Path: hello_world.cwl

Branch/Commit ID: f4384a6f63e1864f46e49bc4a2144bb9ff4036f9
workflow graph somatic_exome: exome alignment and somatic variant detection

somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: 25eab0390f6866ce491b44c89d9e0435d228ab6f
workflow graph kmer_cache_retrieve

https://github.com/ncbi/pgap.git

Path: task_types/tt_kmer_cache_retrieve.cwl

Branch/Commit ID: 9362082213e20315f76f6f5c235cac3aae565747
workflow graph cache_asnb_entries

https://github.com/ncbi-gpipe/pgap.git

Path: task_types/tt_cache_asnb_entries.cwl

Branch/Commit ID: 97330968839983824a11ac32dff981d8ecb00955
workflow graph strelka workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: 25eab0390f6866ce491b44c89d9e0435d228ab6f
workflow graph CNV_pipeline

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/workflow.cwl

Branch/Commit ID: 0c8080efe81a46cb3d0964ab1284b5bd053a793d
workflow graph PerformanceSummaryGenome_v0_1_0.cwl

https://github.com/PMCC-BioinformaticsCore/janis-pipelines.git

Path: janis_pipelines/wgs_somatic/cwl/tools/PerformanceSummaryGenome_v0_1_0.cwl

Branch/Commit ID: b4550175be9d485d509c61d87fddf88a8bdb70c1
workflow graph bam_filtering

BAM filtering

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/subworkflows/bam_filtering.cwl

Branch/Commit ID: 989295661e786a2f2384691777b61d6db46e81ba
workflow graph trimmed_fastq

Quality Control (raw data), Raw Data trimming and Quality Control (pre-processed)

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/subworkflows/trimmed_fastq.cwl

Branch/Commit ID: 572d9e6b9264d98967b33d18110b0e1979b21d6c